Merge branch 'testnewmamba' into 'dev'

Testnewmamba

See merge request epi2melabs/workflow-containers/wf-template!13

CHANGELOG.md

@@ -4,6 +4,10 @@ All notable changes to this project will be documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## [v0.0.6]
+### Changed
+- Explicitely install into base conda env
+
 ## [v0.0.5]
 ### Added
 - Software versioning report example.

Dockerfile

@@ -6,7 +6,8 @@ COPY $ENVFILE $HOME/environment.yaml
 RUN \
     . $CONDA_DIR/etc/profile.d/mamba.sh \
     && micromamba activate \
-    && micromamba install --file $HOME/environment.yaml \
+    && micromamba install -n base --file $HOME/environment.yaml \
+    && micromamba clean --all --yes \
     && fix-permissions $CONDA_DIR \
     && fix-permissions $HOME
 

nextflow.config

@@ -14,7 +14,7 @@ params {
     help = false
     fastq = null
     out_dir = "output"
-    wfversion = "v0.0.5"
+    wfversion = "v0.0.6"
     aws_image_prefix = null
     aws_queue = null
 }